Defining a Modular Signalling Network from the Fly Interactome

doi:10.1186/1752-0509-2-45

BMC Systems Biology
Volume 2

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Jacq B
Brun C

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Research article

Defining a Modular Signalling Network from the Fly Interactome

Anaïs Baudot¹^,3 , Jean-Baptiste Angelelli² , Alain Guénoche² , Bernard Jacq¹ and Christine Brun¹

¹Institut de Biologie du Développement de Marseille-Luminy (IBDML), UMR6216, CNRS/Université de la Méditerranée, Marseille, France

²Institut de Mathématiques de Luminy (IML), UMR6206, CNRS/Université de la Méditerranée, Marseille, France

³Spanish National Cancer Research Centre (CNIO), Structural Biology and Biocomputing, Melchor Fernández Almagro, 3 E-28029 Madrid, Spain

author email corresponding author email

BMC Systems Biology 2008, 2:45doi:10.1186/1752-0509-2-45


Published:	19 May 2008

Additional files

Additional file 1:

Canonical signalling proteins. List of proteins selected as canonical proteins (see Methods) for each of the 10 signalling pathways. Protein names correspond to FlyBase gene symbols.

Format: XLS Size: 15KB Download file

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Additional file 2:

Signalling modules details. Class name and class members, class annotations and p-values for each annotation; annotation(s) of the larger class and number of proteins in the larger class when the signalling classes are nested into larger ones; p-value of the slimmed GO Cellular Component annotation which is over-represented in each class, computed with the GOStat statistical tool of GOToolBox [33].

Format: XLS Size: 15KB Download file

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Additional file 3:

Interactions between canonical pathways. List of protein-protein interactions between canonical proteins from different signalling pathways belonging to a same signalling module. For each interaction, the literature source and a short description are given, when available.

Format: XLS Size: 21KB Download file

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Additional file 4:

Functional status and Gene Ontology annotations of the proteins classified with canonical proteins in each signalling module. The functional status of each protein found in signalling modules (except canonical proteins) is defined as R when the protein is already known to regulate the pathway; AO, when the protein is known to be involved in alternate or other pathways; P, when the protein is predicted to be involved in the pathway by this analysis. For each protein, all available GO annotations in the Biological Process, Molecular Function and Cellular Component ontologies are given. GO annotations are printed in blue if they correspond to a predicted annotation (inferred from Sequence Similarity or Inferred from Electronic Annotation) and not to an experimentally proven function.

Format: XLS Size: 99KB Download file

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Additional file 5:

Protein-protein interactions between the different signalling modules. The 30 links connecting the signalling modules are detailed. The source column indicates whether the interaction has been identified using small scale approaches or large scale two-hybrid screens. In the latter case, the PMID and the reference of the paper have a purple background.

Format: XLS Size: 14KB Download file

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Additional file 6:

Comparison between the connectivity of signalling proteins vs. others.

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Additional file 7:

Analysis of edge-betweenness distribution in the large Drosophila PPI network.

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